Sequence
atgc intronic sequence ATGC exonic sequence...agaggattagggtattatttatcactaataattatatttttgttccctttatatattctgtttcattatacttattttatataaatgtggattgttacagACCGTTGTTTTCTGTCTCGTGGATATTTATATCATGCTTGGGAAAGCATTCTTGCCATATTTGCAAGGGCTTAACAGCACACAGTTGAAGTTGGTCACCA
Basic information
species | Glycine max |
transcript | GLYMA19G35460.1 |
intron # | 20 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os04g42840.1 (Oryza sativa), 3'ss of exon 20
agaggattagggtattatttatcactaataattatatttttgttccctttatatattctgtttcattatacttattttatataaatgtgg--attgttacagACCGTTGTTTTCTGTCTCGTGGATATTTATATCATGCTTGGGAAAGCATTCTTGCCATATTTGCAAGGGCTTAACAGCACACAGTTGAAGTTGGTCACCA
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-aaatgtctcaacctgctatagttcttgcattttcaccatgaatcaattcgtg-atgcatcatcccggttcatatctgatagtattgttttcatatttttagACTGTTGTATTCTGCTTGGTGGATATCTACATCATGCTTGGGAAGGCATTCGTCCCGTATTTGGAAGGGCTTAACAGCACGCAGCTGCGCCTTGTAACTA
upper sequence: GLYMA19G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G052078_T02 (Zea mays), 3'ss of exon 20
-------------------------agaggattagggtattatttatcactaataattatatttttgttccctttatatattctgtttcattatacttattttatataaatgtggattgttacagACCGTTGTTTTCTGTCTCGTGGATATTTATATCATGCTTGGGAAAGCATTCTTGCCATATTTGCAAGGGCTTAACAGCACACAGTTGAAGTTGGTCACCA
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gtcagtaccatcatattttccttgctttgcattattctgtaggtaccgaccttttcttatatcttgaaatttcata-atacattgctctaatg-acttatccttgtcaaattttttttactctagACTGTTGTGTTCTGTCTGGTGGATATCTACATCATGCTTGGGAAAGCATTTGCTCCATACTTGGAAGGGCTTAGCAGCACGCAGCTCCGCCTAGTAACCA
upper sequence: GLYMA19G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: AT2G20190.1 (Arabidopsis thaliana), 3'ss of exon 20
---agaggatt--agggtattatttatcactaataattatatttttgttcc----ctttatatattctgtttcattata-cttattttatataaa--------tgtggattgttacagACCGTTGTTTTCTGTCTCGTGGATATTTATATCATGCTTGGGAAAGCATTCTTGCCATATTTGCAAGGGCTTAACAGCACACAGTTGAAGTTGGTCACCA
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gtaaaggaattgaaaaaaaaaacttgacttttctactcataccagtaacttacgatttgatgaaattggacaagttataactaactctctatgagggggtctttgctgtttgttgcagACAGTGGTGTTCTGTCTAGTAGACATATATATAATGCTTGGGAAAGCATTTTTGCCGTATTTGGAAGGTCTAAACAGCACGCAGGTTCGTCTAGTGACCA
upper sequence: GLYMA19G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv07s0005g05030.t01 (Vitis vinifera), 3'ss of exon 17
----agaggattagggtattatttatcactaataattatatttttgttccctttatatattctgtttcattatacttattttatataaatgtggattgttacagACCGTTGTTTTCTGTCTCGTGGATATTTATATCATGCTTGGGAAAGCATTCTTGCCATATTTGCAAGGGCTTAACAGCACACAGTTGAAGTTGGTCACCA
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catcatatgacaaagttgtgcttaaatacatgatattctacctatgcatgcatt-tatattttattttgt-atattgatttattttgagtctgtgttg--gcagACTGTTGTATTCTGTCTAGTGGACATCTATATCATGCTTGGGAAAGCTTTTTTGCCATACCTGGAGGGGCTTAACAGCACACAATTGCGGTTGGTGACGAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|51338310|gb|CO982176.1|CO982176EST: TGCCTGCTCTTTTCGAAGCTTTTGGTAACCAGAGTACAGATGTTCGGAAG ACCGTTGTTTTCTGTCTCGTGGATATTTATATCATGCTTGGGAAAGCATTC
genomic: TGCCTGCTCTTTTCGAAGCTTTTGGTAACCAGAGTACAGATGTTCGGAAGgtactttaga ... attgttacagACCGTTGTTTTCTGTCTCGTGGATATTTATATCATGCTTGGGAAAGCATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctttatatattctgtttcattatacttattttatataaatgtggattgttacagACCGTTGTTTTCTGTCTCGTGGATATTTATATCATGCTTGGGAAAGCATTCTTGCCATATTTGCAAGGGCTTAACAGCACACAGTTGAAGTTGGTCACCA
atatattctgtttcat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaggattagggtattatttatcactaataattatatttttgttccctttatatattctgtttcattatacttattttatataaatgtggattgttacagACCGTTGTTTTCTGTCTCGTGGATATTTATATCATGCTTGGGAAAGCATTCTTGCCATATTTGCAAGGGCTTAACAGCACACAGTTGAAGTTGGTCACCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgtttc